-
Article
D. Roy and M. Lees.
Understanding resilience in slums using an agent-based model.
Computers, Environment and Urban Systems
80, 101458.
-
PhD Thesis
A. Nikishova.
Uncertainty quantification of multiscale models.
ISBN
9789402819182.
Supervised by
A. G. Hoekstra and P. V. Coveney.
-
Article
B. Czaja, M. Gutierrez, G. Závodszky, D. de Kanter, A. Hoekstra, and O. Eniola-Adefeso.
The influence of red blood cell deformability on hematocrit profiles and platelet margination.
PLoS Computational Biology
16(3), e1007716.
-
Article
-
Article
Jeroen Bruggeman, Rudolf Sprik, and Rick Quax.
Spontaneous cooperation for public goods.
Journal of Mathematical Sociology
.
-
Article
L. Crielaard, P. Dutta, R. Quax, M. Nicolaou, N. Merabet, K. Stronks, and P. M. A. Sloot.
Social norms and obesity prevalence: From cohort to system dynamics models.
Obesity Reviews
21(9), e13044.
-
Article
A. Nikishova, G. E. Comi, and A. G. Hoekstra.
Sensitivity analysis based dimension reduction of multiscale models.
Mathematics and Computers in Simulation
170, pp. 205-220.
-
PhD Thesis
I. Anagnostou.
Risk management in trading activities through the lens of complex systems theory.
ISBN
9789464211009.
Supervised by
B. D. Kandhai and A. G. Hoekstra.
-
Article
Martin Girard and Tristan Bereau.
Regulating Lipid Composition Rationalizes Acyl Tail Saturation Homeostasis in Ectotherms.
Biophysical Journal
119(5), pp. 892-899.
-
Article
A. M. Shibeko, B. Chopard, A. G. Hoekstra, and M. A. Panteleev.
Redistribution of TPA Fluxes in the Presence of PAI-1 Regulates Spatial Thrombolysis.
Biophysical Journal
119(3), pp. 638-651.
-
Article
O. Har-Shemesh, R. Quax, J. S. Lansing, and P. M. A. Sloot.
Questionnaire data analysis using information geometry.
Scientific Reports
10, 8633.
-
Article
S. Sourabh, Markus Hofer, and B. D. Kandhai.
Quantifying systemic risk using Bayesian networks.
Risk.net
.
-
Article
A. H. R. Koch, S. Morsbach, T. Bereau, G. Lévêque, H.-J. Butt, M. Deserno, K. Landfester, and G. Fytas.
Probing Nanoparticle/Membrane Interactions by Combining Amphiphilic Diblock Copolymer Assembly and Plasmonics.
The journal of Physical Chemistry. B
124(5), pp. 742-750.
-
PhD Thesis
B. J. M. van Rooij.
Platelet adhesion and aggregation in high shear blood flow.
ISBN
9789402820287.
Supervised by
A. G. Hoekstra and G. Závodszky.
-
Article
Christian Hoffmann, Alessia Centi, Roberto Menichetti, and Tristan Bereau.
Molecular dynamics trajectories for 630 coarse-grained drug-membrane permeations.
Scientific Data
7(1).
-
PhD Thesis
V. Sivadasan.
Microstructure dynamics in shear thickening suspensions.
ISBN
9789402818611.
Supervised by
A. G. Hoekstra and D. Bonn.
-
Article
Jeroen F. Uleman, René J. F. Melis, Rick Quax, Eddy A. van der Zee, Dick Thijssen, Martin Dresler, Ondine van de Rest, Isabelle F. van der Velpen, Hieab H. H. Adams, Ben Schmand, Inge M. C. M. de Kok, Jeroen de Bresser, Edo Richard, Marcel Verbeek, Alfons G. Hoekstra, Etiënne A. J. A. Rouwette, and Marcel G. M. Olde Rikkert.
Mapping the multicausality of Alzheimer’s disease through group model building.
GeroScience
.
-
Article
C. Scherer, R. Scheid, D. Andrienko, and T. Bereau.
Kernel-Based Machine Learning for Efficient Simulations of Molecular Liquids.
Journal of Chemical Theory and Computation
16(5), pp. 3194-3204.
-
Article
Kevin de Vries, Anna Nikishova, Benjamin Czaja, Gábor Závodszky, and Alfons G Hoekstra.
Inverse Uncertainty Quantification of a cell model using a Gaussian Process metamodel.
International Journal for Uncertainty Quantification
10(4).
-
Article
P. Rutten, M. H. Lees, S. Klous, and P. M. A. Sloot.
Intermittent and persistent movement patterns of dance event visitors in large sporting venues.
Physica A : Statistical Mechanics and its Applications
563, 125448.
-
Article
A. Centi, A. Dutta, S. H. Parekh, and T. Bereau.
Inserting Small Molecules across Membrane Mixtures.
Biophysical Journal
118(6), pp. 1321-1332.
-
Article
P. R. Konduri, H. A. Marquering, E. E. van Bavel, A. Hoekstra, C. B. L. M. Majoie, R. Padmos, and V. Azizi.
In-Silico Trials for Treatment of Acute Ischemic Stroke.
Frontiers in Neurology
11, 558125.
-
Article
O. Metsker, K. Magoev, A. Yakovlev, S. Yanishevskiy, G. Kopanitsa, S. Kovalchuk, and V. V. Krzhizhanovskaya.
Identification of risk factors for patients with diabetes: diabetic polyneuropathy case study.
BMC Medical Informatics and Decision Making
20, 201.
-
Article
B. Csippa, D. Gyürki, G. Závodszky, I. Szikora, and G. Paál.
Hydrodynamic Resistance of Intracranial Flow-Diverter Stents.
Cardiovascular Engineering and Technology
11(1), pp. 1-13.
-
Article
C. Rauer and T. Bereau.
Hydration free energies from kernel-based machine learning: Compound-database bias.
Journal of Chemical Physics
153(1), 014101.
-
Article
BJM van Rooij, G Závodszky, AG Hoekstra, and DN Ku.
Haemodynamic flow conditions at the initiation of high-shear platelet aggregation: a combined in vitro and cellular in silico study.
Interface Focus
11(1), p. 20190126.
-
Article
Chan Liu, Jan Gerit Brandenburg, Omar Valsson, Kurt Kremer, and Tristan Bereau.
Free-energy landscape of polymer-crystal polymorphism.
Soft Matter
16(42), pp. 9683-9692.
-
Article
J. J. Lever, I. A. van de Leemput, E. Weinans, R. Quax, V. Dakos, E. H. van Nes, J. Bascompte, and M. Scheffer.
Foreseeing the future of mutualistic communities beyond collapse.
Ecology Letters
23(1), pp. 2-15.
-
Article
V. S. Muniraj and P. M. A. Sloot.
Emergence of spatio-temporal variations in chemotherapeutic drug efficacy: in-vitro and in-Silico 3D tumour spheroid studies.
BMC Cancer
20, 1201.
-
Proceedings
L. E. Veen and A. G. Hoekstra.
Easing Multiscale Model Design and Coupling with MUSCLE 3.
In:
Computational Science – ICCS 2020.
ISBN
9783030504335.
VI, pp. 425-438.
-
Proceedings
B. Nannes, R. Quax, H. Ashikaga, M. Hocini, R. Dubois, O. Bernus, and M. Haïssaguerre.
Early signs of critical slowing down in heart surface electrograms of ventricular fibrillation victims.
In:
Computational Science – ICCS 2020.
ISBN
9783030504236.
IV, pp. 334-347.
-
Proceedings
A. Presbitero, R. Quax, V. V. Krzhizhanovskaya, and P. M. A. Sloot.
Detecting critical transitions in the human innate immune system post-cardiac surgery.
In:
Computational Science – ICCS 2020.
ISBN
9783030503710.
I, pp. 371-384.
-
Article
J. W. Barnett, C. R. Bilchak, Y. Wang, B. C. Benicewicz, L. A. Murdock, T. Bereau, and S. K. Kumar.
Designing exceptional gas-separation polymer membranes using machine learning.
Sciences advances
6(20), eaaz4301.
-
Article
C. H. Tan, H.-S. Oh, V. M. Sheraton, E. Mancini, S. C. J. Loo, S. Kjelleberg, P. M. A. Sloot, and S. A. Rice.
Convection and the Extracellular Matrix Dictate Inter- and Intra-Biofilm Quorum Sensing Communication in Environmental Systems.
Environmental Science and Technology
54(11), p. 6730–6740.
-
Article
I. Anagnostou, J. Sanchez Rivero, S. Sourabh, and D. Kandhai.
Contagious defaults in a credit portfolio: a Bayesian network approach.
Journal of Credit Risk
16(1), pp. 1-26.
-
Article
P. J. S. Cardoso, J. M. F. Rodrigues, J. Monteiro, R. Lam, V. V. Krzhizhanovskaya, M. H. Lees, J. Dongarra, and P. M. A. Sloot.
Computational Science in the Interconnected World: Selected papers from 2019 International Conference on Computational Science.
Journal of Computational Science
47, 101222.
-
Article
J. F. Rudzinski and T. Bereau.
Coarse-grained conformational surface hopping.
Journal of Chemical Physics
153(21), 214110.
-
PhD Thesis
B. E. Czaja.
Cell resolved blood flow modeling with the Lattice Boltzmann method.
ISBN
9789464211191.
Supervised by
A. G. Hoekstra and G. Závodszky.
-
Article
J. Burger, D. C. van der Veen, D. J. Robinaugh, R. Quax, H. Riese, R. A. Schoevers, and S. Epskamp.
Bridging the gap between complexity science and clinical practice by formalizing idiographic theories: a computational model of functional analysis.
BMC Medicine
18, 99.
-
Article
Britt JM van Rooij, Gábor Závodszky, Alfons G Hoekstra, and David N Ku.
Biorheology of occlusive thrombi formation under high shear: in vitro growth and shrinkage.
Scientific Reports
10(1), pp. 1-11.
-
Article
D. Roy, D. Bernal, and M. Lees.
An exploratory factor analysis model for slum severity index in Mexico City.
Urban Studies
57(4), pp. 789-805.
-
Article
P. S. Zun, A. J. Narracott, P. C. Evans, B. J. M. van Rooij, and A. G. Hoekstra.
A particle-based model for endothelial cell migration under flow conditions.
Biomechanics and Modeling in Mechanobiology
19(2), pp. 681-692.
-
Article
G. Závodszky, B. Csippa, G. Paál, and I. Szikora.
A novel virtual flow diverter implantation method with realistic deployment mechanics and validated force response.
International Journal for Numerical Methods in Biomedical Engineering
36(6), e3340.
-
Proceedings
B. Czaja, G. Závodszky, and A. Hoekstra.
A Heterogeneous Multi-scale Model for Blood Flow.
In:
Computational Science – ICCS 2020.
ISBN
9783030504335.
VI, pp. 403-409.
-
Article
-
Article
Saad Alowayyed, Maxime Vassaux, Ben Czaja, Peter V. Coveney, and Alfons G. Hoekstra.
Towards heterogeneous multi-scale computing on large scale parallel supercomputers.
Supercomputing Frontiers and Innovations
6(4), pp. 20-43.
-
PhD Thesis
V. Sheraton Muniraj.
The emergence of biofilms.
Supervised by
P. M. A. Sloot.
-
Article
V. Sivadasan, E. Lorenz, A. G. Hoekstra, and D. Bonn.
Shear thickening of dense suspensions: The role of friction.
Physics of Fluids
31(10), 103103.
-
Article
A. Nikishova and A. G. Hoekstra.
Semi-intrusive uncertainty propagation for multiscale models.
Journal of Computational Science
35, pp. 80-90.
-
Article
A. Nikishova, L. Veen, P. Zun, and A. G. Hoekstra.
Semi-intrusive multiscale metamodelling uncertainty quantification with application to a model of in-stent restenosis.
Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences
377(2142), 2018154.
-
Article
-
Article
I. Anagnostou and D. Kandhai.
Risk Factor Evolution for Counterparty Credit Risk under a Hidden Markov Model.
Risks
7(2), 66.
-
Article
G. Závodszky, B. van Rooij, B. Czaja, V. Azizi, D. de Kanter, and A. G. Hoekstra.
Red blood cell and platelet diffusivity and margination in the presence of cross-stream gradients in blood flows.
Physics of Fluids
31(3), 031903.
-
Article
M. V. Sheraton, V. R. Melnikov, and P. M. A. Sloot.
Prediction and quantification of bacterial biofilm detachment using Glazier-Graner–Hogeweg method based model simulations.
Journal of Theoretical Biology
482, 109994.
-
Article
S. Alowayyed, T. Piontek, J. L. Suter, O. Hoenen, D. Groen, O. Luk, B. Bosak, P. Kopta, K. Kurowski, O. Perks, K. Brabazon, V. Jancauskas, D. Coster, P. V. Coveney, and A. G. Hoekstra.
Patterns for High Performance Multiscale Computing.
Future Generation Computer Systems
91, pp. 335-346.
-
Proceedings
V. Azizi Tarksalooyeh, G. Závodszky, and A. G. Hoekstra.
Optimizing Parallel Performance of the Cell Based Blood Flow Simulation Software HemoCell.
In:
Computational Science – ICCS 2019.
ISBN
9783030227449.
3, pp. 537-547.
-
Article
A. G. Hoekstra, S. Portegies Zwart, and P. V. Coveney.
Multiscale modelling, simulation and computing: from the desktop to the exascale.
Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences
377(2142), 20180355.
-
Article
A. G. Hoekstra, B. Chopard, D. Coster, S. Portegies Zwart, and P. V. Coveney.
Multiscale computing for science and engineering in the era of exascale performance.
Philosophical Transactions of the Royal Society A - Mathematical, Physical and Engineering Sciences
377(2142), 20180144.
-
Article
P. Berg, S. Voß, G. Janiga, S. Saalfeld, A. W. Bergersen, K. Valen-Sendstad, J. Bruening, L. Goubergrits, A. Spuler, T. L. Chiu, A. C. O. Tsang, G. Copelli, B. Csippa, G. Paál, G. Závodszky, F. J. Detmer, B. J. Chung, J. R. Cebral, S. Fujimura, H. Takao, C. Karmonik, S. Elias, N. M. Cancelliere, M. Najafi, D. A. Steinman, V. M. Pereira, S. Piskin, E. A. Finol, M. Pravdivtseva, P. Velvaluri, H. Rajabzadeh-Oghaz, N. Paliwal, H. Meng, S. Seshadhri, S. Venguru, M. Shojima, S. Sindeev, S. Frolov, Y. Qian, Y.-A. Wu, K. D. Carlson, D. F. Kallmes, D. Dragomir-Daescu, and O. Beuing.
Multiple Aneurysms AnaTomy CHallenge 2018 (MATCH)—phase II: rupture risk assessment.
International Journal of Computer Assisted Radiology and Surgery
14(10), p. 1795–1804.
-
Article
W. R. J. Vermeulen, D. Roy, and R. Quax.
Modelling the Influence of Regional Identity on Human Migration.
Urban Science
3(3), 78.
-
Article
V. Prana, P. Tieri, M. C. Palumbo, E. Mancini, and F. Castiglione.
Modeling the effect of high calorie diet on the interplay between adipose tissue, inflammation and diabetes.
Computational and Mathematical Methods in Medicine
2019, 7525834.
-
Proceedings
Sara Shakeri, Valentina Maccatrozzo, Lourens Veen, Rena Bakhshi, Leon Gommans, Cees De Laat, and Paola Grosso.
Modeling and matching digital data marketplace policies.
In: Proceedings - IEEE 15th International Conference on eScience, eScience 2019.
ISBN 9781728124513.
pp. 570-577.
-
Article
Z. Huang, E. Lum, G. Jimenez, M. Semwal, P. Sloot, and J. Car.
Medication management support in diabetes: a systematic assessment of diabetes self-management apps.
BMC Medicine
17, 127.
-
Article
E. Caroselli, F. Gizzi, F. Prada, C. Marchini, V. Airi, J. Kaandorp, G. Falini, Z. Dubinsky, and S. Goffredo.
Low and variable pH decreases recruitment efficiency in populations of a temperate coral naturally present at CO2 vent.
Limnology and Oceanography
64(3), pp. 1059-1069.
-
Article
P. S. Zun, A. J. Narracott, C. Chiastra, J. Gunn, and A. G. Hoekstra.
Location-Specific Comparison Between a 3D In-Stent Restenosis Model and Micro-CT and Histology Data from Porcine In Vivo Experiments.
Cardiovascular Engineering and Technology
10(4), p. 568–582.
-
Proceedings
D. Groen, R. A. Richardson, D. W. Wright, V. Jancauskas, R. Sinclair, P. Karlshoefer, M. Vassaux, H. Arabnejad, T. Piontek, P. Kopta, B. Bosak, J. Lakhlili, O. Hoenen, D. Suleimenova, W. Edeling, D. Crommelin, A. Nikishova, and P. V. Coveney.
Introducing VECMAtk - Verification, Validation and Uncertainty Quantification for Multiscale and HPC Simulations.
In: Computational Science – ICCS 2019.
ISBN 9783030227470.
IV, pp. 479-492.
-
Article
J. Runge, S. Bathiany, E. Bollt, G. Camps-Valls, D. Coumou, E. Deyle, C. Glymour, M. Kretschmer, M. D. Mahecha, J. Muñoz-Marí, E. H. van Nes, J. Peters, R. Quax, M. Reichstein, M. Scheffer, B. Schölkopf, P. Spirtes, G. Sugihara, J. Sun, K. Zhang, and J. Zscheischler.
Inferring causation from time series in Earth system sciences.
Nature Communications
10, 2553.
-
Article
E. Ranguelova, B. Weel, D. Roy, M. Kuffer, K. Pfeffer, and M. Lees.
Image Based Classification of Slums, Built-Up and Non-Built-Up Areas in Kalyan and Bangalore, India.
European Journal of Remote Sensing
52(S1), pp. 40-61.
-
Article
B. J. M. van Rooij, G. Závodszky, V. W. Azizi Tarksalooyeh, and A. G. Hoekstra.
Identifying the start of a platelet aggregate by the shear rate and the cell-depleted layer.
Journal of the Royal Society Interface
16(159), 20190148.
-
Article
Alva Presbitero, Emiliano Mancini, Filippo Castiglione, Valeria V Krzhizhanovskaya, and Rick Quax.
Game of neutrophils: modeling the balance between apoptosis and necrosis.
BMC Bioinformatics
20(Suppl 6), p. 475.
-
Article
E. Weinans, J. J. Lever, S. Bathiany, R. Quax, J. Bascompte, E. H. van Nes, M. Scheffer, and I. A. van de Leemput.
Finding the direction of lowest resilience in multivariate complex systems.
Journal of the Royal Society Interface
16(159), 20190629.
-
Article
J. Wang, M. Kuffer, D. Roy, and K. Pfeffer.
Deprivation pockets through the lens of convolutional neural networks.
Remote Sensing of the Environment
234, 111448.
-
Article
Marcel G M Olde Rikkert, P. M. van Zuijlen, Marinus de Kleuver, Ariëtte van Reekum, A. G. Hoekstra, and P. M. A. Sloot.
Complexiteit van ziekten.
Nederlands Tijdschrift voor Geneeskunde
163(35), D3970.
-
Chapter
G. Moysiadis, I. Anagnostou, and D. Kandhai.
Calibrating the Mean-Reversion Parameter in the Hull-White Model Using Neural Networks.
In:
ECML PKDD 2018 Workshops.
ISBN
9783030134631.
pp. 23-36.
-
Article
P. Dutta, L. Ma, Y. Ali, P. M. A. Sloot, and J. Zheng.
Boolean network modeling of β-cell apoptosis and insulin resistance in type 2 diabetes mellitus.
BMC Systems Biology
13(Supplement 2), 36.
-
Article
Z. Huang, E. Tan, E. Lum, P. Sloot, B. O. Boehm, and J. Car.
A Smartphone App to Improve Medication Adherence in Patients With Type 2 Diabetes in Asia.
JMIR mHealth and uHealth
7(9), e14914.
-
PhD Thesis
P. Zun.
3D modelling of in-stent restenosis.
Supervised by
A. G. Hoekstra, A. V. Boukhanovsky, and A. Svitenkov.